getTaxonomy: Get the Taxonomic tree function

In klarakaleb/OmaDB: R wrapper for the OMA REST API

Get the Taxonomic tree function

Description

The function to obtain the taxonomic tree from the database in the newick format that can be plugged into phylo.io for visualisation.

Usage

getTaxonomy(root = NULL, members = NULL, newick = TRUE)

Arguments

root	optional parameter, the root of the node of interest
members	optional parameter, list of member ncbi taxon or UniProt IDs that should be included in the induced taxonomy.
newick	optional parameter, boolean default set to TRUE

Value

an object containing the JSON keys as attributes

Examples

getTaxonomy()
getTaxonomy(members='YEAST,ASHGO')
getTaxonomy(root='Alveolata')

klarakaleb/OmaDB documentation built on April 18, 2024, 8:03 a.m.